Search results

No need to do everything at once. If there's a study that's central to the hypothesis, you can make a thread for just that one to start. Normally we don't add any color commentary in the first post either, just the abstract, so you don't have to add comments immediately either. Maybe others will...

Nature: 'One potent gene raises risk of Alzheimer’s, Parkinson’s and other brain diseases' 'Massive proteomics database links gene variant APOE4 to chronic inflammation.' 'A gene variant known to increase the risk of Alzheimer’s disease also makes people vulnerable to a host of other...

APOE ε4 carriers share immune-related proteomic changes across neurodegenerative diseases Artur Shvetcov, Erik C. B. Johnson, Laura M. Winchester, Keenan A. Walker, Heather M. Wilkins, Terri G. Thompson, Jeffrey D. Rothstein, Varsha Krish, Farhad B. Imam, The Global Neurodegeneration Proteomics...

Oh yeah, I'm familiar. I don't think I have an issue with just making the code public immediately. Thanks for the suggestion! Maybe I'll reach out once I have at least like a couple hundred studies saved.

Yeah, I might do that. This is the first somewhat complete coding project I've done, and I've never collaborated with others in coding, so I'm not sure how that would go. I imagine people who are much more experienced than me sending PRs that I can't understand at all, so I'd be nervous about...

You quoted this related part, but I want to highlight it: Control group started off with a significantly higher energy level as measured by RAND-36: And the effect on the primary fatigue outcome was negligible:

That might be the best way to go. I guess I was thinking if a study reports that 5 genes are really interesting and have really big effect sizes, but 4000 total are significant, then including all 4000 really waters down the information from the small number that are really interesting. I...

Yeah, that's one use case: quickly find if and where a gene was significant and how often. You could see whether this is a new finding, in which case it might just be chance, or if it's been significant ten times already, in which case it might make sense to dig into this finding specifically...

I see, thanks. So the DNA is a bit looser or denser near these genes in ME/CFS is I think what I'm getting. That's a type of finding I'd never seen before. But I think it makes sense to add along with mutations and abundance since it's a finding that is different from controls and refers to a...

Just went through this paper, which is quite intense and full of terms I don't understand: Transcriptional reprogramming primes CD8+ T cells toward exhaustion in Myalgic encephalomyelitis/chronic fatigue syndrome I stored all the genes from the text and images that appear to be differentially...

Thanks, yes, that's what I was leaning towards. I didn't know if I should take a purist approach of just accepting whatever authors say, or allowing for a bit of interpretation.

Oh yeah, I plan to do something like that. Figured since it'll mostly be people coming from this thread for now, it's not a big rush, but yep good idea.

I hope you and others can find it useful. The way we've been doing it here of just making a post with all the genes in a thread for a study to be able to search for them is good, but I thought we could probably complement that with a more systematic approach. Oh, I actually try to remove those...

Thank you. In my head, I'm imagining this website as kind of a proof of concept that eventually convinces people who have much more expertise in web development and biomedical research than me to take over or make a better version. I think I can get through all ME/CFS studies on my own in a...

I'm also pretty burned out from coding, so it might take some time for me to add the ability for there to be different users that can add findings.

Current procedure and criteria: Add study First add a study by typing in the DOI, which looks up the rest of the info about the study, then click Save. Add study cohort On the study detail page, click Add study cohort. A study cohort describes the group of interest. For example, if a study...

Theoretically, yeah, I would like to make it so that I can give other people accounts to be able to add studies and genes from those studies. That's the part I'm most nervous about though because of grey areas in deciding what genes make sense to save, and I don't want there to be too much...

It might, but it adds a lot more complexity. Partly because of the added code to write to store that kind of information, but mainly because a single study might find a gene was both up and down in different parts of the study, for example it might be up in the CSF and down in the plasma, so I...

I've looked at 280 studies so far out of about 8000 (completed looking at all studies from 2025 so far), and saved 27 that had gene findings in ME/CFS (includes some older studies like all three IGHV3-30 studies).

For the past month or so I've been working on a project. It's a website for logging genes that were significant from studies on ME/CFS, meant to make it easier to compare genes that are replicated in multiple studies. You can take a look at https://sickgenes.xyz Screenshot: In essence, it's...